The Sampling Locations are Closely Related to the Positive Rate of Novel Coronavirus Nucleic Acid Detection

2020 ◽  
Vol 66 (06/2020) ◽  
Author(s):  
Daming Wang ◽  
Hongfu Wang ◽  
Shaobo Li ◽  
Tingyu Ren ◽  
Zhaopeng Cao ◽  
...  
Author(s):  
Chenyao Lin ◽  
Jie Xiang ◽  
Mingzhe Yan ◽  
Hongze Li ◽  
Shuang Huang ◽  
...  

AbstractBackgroundIn December 2019, a novel coronavirus (SARS-CoV-2) infected pneumonia (COVID-19) occurred in Wuhan, China. Diagnostic test based on real-time reverse transcription polymerase chain reaction assay (qRT-PCR) was the main means of confirmation, and sample collection was mostly throat swabs, which was easy to miss the diagnosis. It is necessary to seek specimen types with higher detection efficiency and accuracy.MethodsPaired specimens of throat swabs and sputum were obtained from 54 cases, and RNA was extracted and tested for 2019-nCoV (equated with SARS-CoV-2) by qRT-PCR assay.ResultsThe positive rates of 2019-nCoV from sputum specimens and throat swabs were 76.9% and 44.2%, respectively. Sputum specimens showed a significantly higher positive rate than throat swabs in detecting viral nucleic acid using qRT-PCR assay (P=0.001).ConclusionsThe detection rates of 2019-nCoV from sputum specimens are significantly higher than throat swabs. We suggest that sputum would benefit for the detection of 2019-nCoV in patients who produce sputum. The results can facilitate the selection of specimens and increase the accuracy of diagnosis.


Author(s):  
Gao Yong ◽  
Yuan Yi ◽  
Li Tuantuan ◽  
Wang Xiaowu ◽  
Li Xiuyong ◽  
...  

AbstractBackgroundThe spread of an novel coronavirus (SARS-CoV-2, previously named 2019-nCoV) has already taken on pandemic proportions, affecting over 100 countries in a matter of weeks. Elucidating the diagnostic value of different methods, especially the auxiliary diagnosis value of antibodies assays for SARS-CoV-2 infection is helpful for improving the sensitivities of pathogenic-diagnosis, providing timely treatment, and differentiating the infected cases from the healthy, thus preventing further epidemics.MethodsMedical records from 38 patients with confirmed SARS-CoV-2 infection in the Second People’s Hospital of Fuyang from January 22, 2020 to February 28, 2020 were collected and retrospectively analyzed. Specimens including throat swabs, sputum and serum were collected during the hospitalization period, viral RNAs and serum IgM-IgG antibodies to SARS-CoV-2 were measured respectively. The detectability of different methods as well as the auxiliary diagnosis value of antibodies test for SARS-CoV-2 infection were analyzed.ResultsAmong 38 patients, the total seropositive rate for IgM and IgG was 50.0% and 92.1%, respectively. Two patients remained seronegative throughout the course of illness. In the early phase of illness, the RNA test for sputum specimens possessed the highest detectability(92.3%), followed by the the RNA test for throat swabs (69.2%), and the antibodies assays presented lower positive rates(IgM, 23.0%, IgG, 53.8%). While, the sensitivity of antibodies assays overtook that of RNA test since day 8 after onset (IgM, 50.0%; IgG, 87.5%). Of note, the positive rate of throat swabs was only 13.0% for cases in later phase(≥15 d.a.o), and the sensitivities of IgM and IgG rose to 52.2% and 91.3%, respectively. Combined use of antibodies assay and qRT-PCR at the same time was able to improve the sensitivities of pathogenic-diagnosis, especially for the throat swabs group at the later stage of illness. Moreover, most of these cases with undetectable viral RNA in throat swabs specimens at the early stage of illness were able to be IgM/IgG seropositive after 7 days.ConclusionsThe antibodies detection against SARS-CoV-2 offers vital clinical information for physicians, and could be used as an effective supplementary indicator for suspected cases of negative viral nucleic acid detection or in conjunction with nucleic acid detection in the diagnosis of suspected cases.


2020 ◽  
Vol 58 (7) ◽  
pp. 1089-1094 ◽  
Author(s):  
Chenyao Lin ◽  
Jie Xiang ◽  
Mingzhe Yan ◽  
Hongze Li ◽  
Shuang Huang ◽  
...  

AbstractObjectivesIn December 2019, a novel coronavirus (SARS-CoV-2)-infected pneumonia (COVID-19) occurred in Wuhan, China. Laboratory-based diagnostic tests utilized real-time reverse transcriptase polymerase chain reaction (RT-PCR) on throat samples. This study evaluated the diagnostic value to analyzing throat and sputum samples in order to improve accuracy and detection efficiency.MethodsPaired specimens of throat swabs and sputum were obtained from 54 cases, and RNA was extracted and tested for 2019-nCoV (equated with SARS-CoV-2) by the RT-PCR assay.ResultsThe positive rates of 2019-nCoV from sputum specimens and throat swabs were 76.9% and 44.2%, respectively. Sputum specimens showed a significantly higher positive rate than throat swabs in detecting viral nucleic acid using the RT-PCR assay (p = 0.001).ConclusionsThe detection rates of 2019-nCoV from sputum specimens were significantly higher than those from throat swabs. We suggest that sputum would benefit for the detection of 2019-nCoV in patients who produce sputum. The results can facilitate the selection of specimens and increase the accuracy of diagnosis.


2020 ◽  
Author(s):  
Jia Liu ◽  
Yi Chen ◽  
Kefan Xie ◽  
Xiaohong Chen

Abstract At present, several countries, such as Germany and India, have employed a pool testing method on the nucleic acid testing of COVID-19 for the shortage of detection kits. In this method, the testing is performed on several samples of the cases together as a bunch. If the test result of the bunch is negative, then it is shown that none of the cases in the bunch has been infected with the novel coronavirus. On the contrary, if the test result of the bunch is positive, then the samples are tested one by one to confirm which cases are infected. We verified that the pool testing method of COVID-19 is effective in the situation of the shortage of nucleic acid detection kits based on probabilistic modeling. Moreover, the following interesting results are also obtained. (1) If the infection rate is extremely low, while the same number of detection kits are used, the expected number of cases that can be tested by the pool testing method is far more than that by the one-by-one testing method. (2) The pool testing method is effective only when the infection rate is less than 0.3078. While the infection rate decreases from 0.3078 to 0.0018, the optimal sample sizes in one bunch increases from 3 to 25. In general, the higher the infection rate, the smaller the optimal sample size in one bunch. (3) If N samples are tested by the pool testing method, while the sample size in one bunch is G, the number of detection kits required is in the interval (N/G, N). Additionally, the lower the infection rate, the fewer detection kits are needed. Therefore, the pool testing method is not only suitable for the situation of the shortage of detection kits, but also the situation of the overall or sampling detection for a large population.


2020 ◽  
Vol 10 (1) ◽  
Author(s):  
Ji-gan Wang ◽  
Hai-rong Cui ◽  
Hua-bo Tang ◽  
Xiu-li Deng

Abstract In order to understand the clinical manifestations and incidence of gastrointestinal symptoms of coronavirus disease (COVID-19) in children and discuss the importance of fecal nucleic acid testing.We retrospectively analyzed studies on gastrointestinal symptoms and fecal nucleic acid detection in pediatric COVID-19 patients from January 1, 2020 to August 10, 2020, including prospective clinical studies and case reports. The results of fecal nucleic acid detection were analyzed systematically. Stata12.0 software was used for meta-analysis.The results showed that the most common gastrointestinal symptoms in children with COVID-19 were vomiting and diarrhea, with a total incidence of 17.7% (95% Cl 13.9–21.5%). However, the prevalence of gastrointestinal symptoms in other countries (21.1%, 95% CI 16.5–25.7%) was higher compared to China (12.9%, 95% CI 8–17.7%). In Wuhan, the pooled prevalence was much higher (41.3%, 95% CI 3.2–79.4%) compared to areas outside Wuhan in China (7.1%, 95% CI 4.0–10.3%). The positive rate of fecal nucleic acid testing in COVID-19 children was relatively high at 85.8% (91/106). Additionally, 71.2% (52/73) were still positive for fecal nucleic acid after respiratory tract specimens turned negative. One and two weeks after the respiratory tract specimens turned nucleic acid-negative, 45.2% (33/73) and 34.2% (25/73) patients, respectively, remained fecal nucleic acid-positive. The longest interval between the respiratory tract specimens turning negative and fecal specimens turning negative exceeded 70 days. Conclusions and relevance: gastrointestinal symptoms in pediatric COVID-19 are relatively common. Attention should be paid to the detection of fecal nucleic acids in children. Fecal nucleic acid-negative status should be considered as one of the desegregation standards.


2021 ◽  
Vol 6 (2) ◽  
pp. 27-28
Author(s):  
Lei Hui ◽  
Xiang Tao

Objective: To investigate whether yogurt reduces the risk of infection of COVID—19. Methods: 10000 citizens in Wuhan who drink yogurt every day and 10000 citizens in Wuhan who do not drink yogurt were retrospective reviewed by telephone follow-up. Results: The positive rate of COVID—19 nucleic acid detection was 0.13% among the 10000 people in Wuhan who drink yogurt every day. The positive rate of COVID—19 nucleic acid detection was 7.89% among the 10000 people in Wuhan who do not drink yogurt. The COVID—19 infection rate of the citizens who drink yogurt every day is significantly lower than that of the citizens who do not drink yogurt. Conclusion: Yogurt reduces the risk of infection of COVID—19.


2020 ◽  
Author(s):  
Ji-Gan Wang ◽  
Hairong Cui ◽  
Huabo Tang ◽  
Xiu-li Deng

Abstract In order to understand the clinical manifestations and incidence of gastrointestinal symptoms of coronavirus disease (COVID-19) in children and discuss the importance of fecal nucleic acid testing.We retrospectively analyzed studies on gastrointestinal symptoms and fecal nucleic acid detection in pediatric COVID-19 patients from January 1, 2020 to August 10, 2020, including prospective clinical studies and case reports. The results of fecal nucleic acid detection were analyzed systematically. Stata12.0 software was used for meta-analysis.The results showed that the most common gastrointestinal symptoms in children with COVID-19 were vomiting and diarrhea, with a total incidence of 17.7% (95% Cl: 13.9%-21.5%). However, the prevalence of gastrointestinal symptoms in other countries (21.1%, 95% CI: 16.5%-25.7%) was higher compared to China (12.9%, 95% CI: 8%-17.7%). In Wuhan, the pooled prevalence was much higher (41.3%, 95 % CI: 3.2%-79.4%) compared to areas outside Wuhan in China (7.1%, 95 % CI: 4.0%-10.3%).The positive rate of fecal nucleic acid testing in COVID-19 children was relatively high at 85.8% (91/106). Additionally, 71.2% (52/73) were still positive for fecal nucleic acid after respiratory tract specimens turned negative. One and two weeks after the respiratory tract specimens turned nucleic acid-negative, 45.2% (33/73) and 34.2% (25/73) patients, respectively, remained fecal nucleic acid-positive. The longest interval between the respiratory tract specimens turning negative and fecal specimens turning negative exceeded 70 days.Conclusions and Relevance:Gastrointestinal symptoms in pediatric COVID-19 are relatively common. Attention should be paid to the detection of fecal nucleic acids in children. Fecal nucleic acid-negative status should be considered as one of the desegregation standards.


2020 ◽  
Author(s):  
shasha zhang

Abstract this paper introduces a method for simultaneous detection of 2019 novel coronavirus(2019-nCoV) and influenza virus by dual fluorescent RT-PCR, providing some references for the current clinical first-line practice against the epidemic. More than 1500 samples of nasopharyngeal swabs, sputum and anal swabs were collected. Nucleic acid detection kits from two manufacturers of novel coronavirus and type A/B influenza virus were selected for the detection. Carboxyfluorescein (FAM) and green fluorescent protein (VIC) labeled probes were used to achieve simultaneous detection of the four gene targets using a double fluorescent RT-PCR reaction system. According to the analysis for the results of nucleic acid detection of existing samples, there is no cross infection between 2019 novel coronavirus and type A/B influenza virus. The Ct value of novel coronavirus nucleic acid in anal swab>Ct value of sputum > Ct value of nasopharyngeal swab in the same patient. Conclusion: A method for rapid and simultaneous detection of novel coronavirus and influenza virus by dual fluorescent RT-PCR was established to improve the detection efficiency and reduce the cost, which could be used for rapid and emergent detection of 2019 novel coronavirus and type A/B influenza virus.


Author(s):  
Lu Guo ◽  
Xuehan Sun ◽  
Xinge Wang ◽  
Chen Liang ◽  
Haiping Jiang ◽  
...  

AbstractThe novel coronavirus (CoV) disease termed COVID-19 (Coronavirus Disease-19) caused by SARS-CoV-2 (Severe Acute Respiratory Syndrome Coronavirus-2) is causing a massive pandemic worldwide, threatening public health systems across the globe. During this ongoing COVID-19 outbreak, nucleic acid detection has played an important role in early diagnosis. Here we report a SARS-CoV-2 detection protocol using a CRISPR-based CRISPR diagnostic platform - CDetection (Cas12b-mediated DNA detection). By combining sample treatment protocols and nucleic acid amplification methods with CDetection, we have established an integrated viral nucleic acid detection platform - CASdetec (CRISPR-assisted detection). The detection limit of CASdetec for SARS-CoV-2 pseudovirus is 1 × 104 copies/mL, with no cross reactivity observed. Our assay design and optimization process can provide guidance for future CRISPR-based nucleic acid detection assay development and optimization.


2020 ◽  
Author(s):  
Peiyan Zhang ◽  
Zhao Cai ◽  
Weibo Wu ◽  
Ling Peng ◽  
Yinfeng Li ◽  
...  

Abstract BackgroundThe novel coronavirus disease 2019 (COVID-19) outbreak started in Wuhan, Hubei, China since Dec 2019 and cases of infection have been continuously reported in various countries. It is now clear that the COVID-19 coronavirus is transmissible from human to human. Nucleic acid detection is considered as the gold standard for the diagnosis of COVID-19. In this case report, we describe our experience in detection of COVID-19 from a confirmed patient using nucleic acid test of bronchoalveolar-lavage fluid (BALF) samples but not nasopharyngeal swabs.Case presentationWe present a case of severely ill COVID-19 infected 46-year-old man with fever, coughing and chest tightness. We performed viral detection using his BALF samples and imaging method (CT) for confirmation. The patient received combination of interferonalfa-1b and ribavirin, lopinavir and ritonavir for antiviral treatment at different stages. Other medication was also given to him in combination for anti-inflammation, intestinal microbial regulation, phlegm elimination, liver protection and pulmonary fibrosis prevention purposes. We provided oxygen supply to him using BIPAP ventilator and high-flow humidification oxygen therapy instrument to facilitate respiration. The patient was cured and discharged.ConclusionThis case report described an effective supportive medication scheme to treat COVID-19 infected patient and emphasized the necessity of detection of the viral genome using BALF samples and its significance in the diagnosis and prognosis of the disease.


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